cran-packages: restructured

pkgs/development/r-modules/patches/rpud.patch

@@ -0,0 +1,29 @@
+diff -ru -x '*~' rpud_orig/configure rpud/configure
+--- rpud_orig/configure	2010-09-08 02:14:55.000000000 +0900
++++ rpud/configure	2014-10-25 16:46:39.479098648 +0900
+@@ -1794,7 +1794,7 @@
+ fi
+ 
+ LIBS="-L${CUDA_HOME}${CUDA_LIB_DIR} -lcublas -lcuda"
+-RPATHFLAG="-Wl,-rpath,${CUDA_HOME}${CUDA_LIB_DIR}"
++RPATHFLAG="-Xlinker -rpath=${CUDA_HOME}${CUDA_LIB_DIR}"
+ 
+ 
+ 
+diff -ru -x '*~' rpud_orig/src/Makefile.in rpud/src/Makefile.in
+--- rpud_orig/src/Makefile.in	2010-08-31 01:53:50.000000000 +0900
++++ rpud/src/Makefile.in	2014-10-25 16:45:30.248109883 +0900
+@@ -3,11 +3,11 @@
+ OBJS := rpud.o rpudist.o
+ 
+ #compiler/preprocessor options
+-INCS := -I@CUDA_HOME@/include
++INCS := -I@CUDA_HOME@/usr_include
+ PARAMS := -Xcompiler "@R_INCLUDE@ @CPICFLAGS@"
+ 
+ #linker options
+-LD_PARAMS := -Xlinker "@R_LIB@ @RPATHFLAG@"
++LD_PARAMS := -Xlinker "--export-dynamic -fopenmp -L${R_HOME}/lib -lR @RPATHFLAG@" 
+ LIBS :=  @LIBS@
+ 
+ TARGETS := rpud.so